7ZA2
GPC3-Unc5D octamer structure and role in cell migration
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | DIAMOND BEAMLINE I04 |
Synchrotron site | Diamond |
Beamline | I04 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2018-12-10 |
Detector | DECTRIS EIGER2 XE 16M |
Wavelength(s) | 0.97950 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 102.113, 157.994, 126.572 |
Unit cell angles | 90.00, 102.91, 90.00 |
Refinement procedure
Resolution | 66.616 - 4.600 |
Rwork | 0.307 |
R-free | 0.34700 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5ftt GPC3 |
RMSD bond length | 0.008 |
RMSD bond angle | 1.384 |
Data reduction software | xia2 |
Data scaling software | xia2 |
Phasing software | PHENIX |
Refinement software | REFMAC (5.8.0267) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 66.620 | 4.760 |
High resolution limit [Å] | 4.600 | 4.600 |
Rmerge | 0.093 | |
Rpim | 0.040 | |
Number of reflections | 21870 | 2165 |
<I/σ(I)> | 7.77 | 1.81 |
Completeness [%] | 99.7 | |
Redundancy | 6.6 | |
CC(1/2) | 0.997 | 0.485 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION | 8.5 | 291.15 | 15% w/v PEG 3000, 20% v/v 1, 2, 4-butanetrol, 1% w/v NDSB 256, 0.1 M Gly-GLy/AMPD (pH 8.5) and 0.2 M of amino acids (DL-arginine HCL, DL-threonine, DL-histidine HCL H2O, DL-5-hydroxylysine HCL, trans-4-hydroxyl-L-proline). |